TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv2287/yjcE:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3749c/-	(cc=0.8532)	info on Rv3749c/-
Rv0293c/-	(cc=0.8463)	info on Rv0293c/-
Rv1913/-	(cc=0.8303)	info on Rv1913/-
Rv1356c/-	(cc=0.799)	info on Rv1356c/-
Rv2668/-	(cc=0.7529)	info on Rv2668/-
Rv0182c/sigG	(cc=0.7422)	info on Rv0182c/sigG
Rv2885c/-	(cc=0.6702)	info on Rv2885c/-
Rv3446c/-	(cc=0.6034)	info on Rv3446c/-
Rv0187/-	(cc=0.5928)	info on Rv0187/-
Rv2841c/nusA	(cc=0.5846)	info on Rv2841c/nusA

Correlation of Rv2287/yjcE with Rv3749c/-

Normalized LFCs for Rv2287/yjcE:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2287/yjcE	Rv3749c/-
Fe_supp_jason_reseq	-0.483	0.253
low_pH_jason_reseq	0.557	-0.602
NO_jason_reseq	0.197	0.026
B6_jason_reseq	-0.28	0.466
MHCII_jason_reseq	0.487	0.688
Isoniazid02	0.148	-0.227
Rifampicin4	-0.222	0.062
Ethambutol3	0.336	0.136
Meropenem3	0.528	-0.904
Vancomycin16	-0.143	-0.464
Rv2680_day32	-0.568	-0.008
H37Rv_KO_MarP	-0.102	0.429
hypoxia_3wks	0.215	-0.1
hypoxia_6wks	-0.499	-0.098
glycerol	0.347	-2.336
cholesterol	-0.841	-1.456
AJ	-0.257	0.225
Bibs02	-0.709	-0.535
Bibs02c	0.083	0.779
BL6	0.668	-0.411
BL6a	0.228	0.532
BXD01	-0.267	-0.171
BXD010	0.22	0.558
BXD011	-0.249	-0.294
BXD03	0.204	-0.054
BXD04	-0.633	-0.348
BXD05	0.213	0.359
BXD06	-0.089	-0.489
BXD07	-0.129	-0.021
BXD08	-0.011	-0.206
BXD09	-0.118	-0.101
CAST	-0.255	0.354
CCcont	-0.14	-0.373
DS01	-0.039	-0.101
DS02	-0.72	-0.487
DS04	0.535	-0.521
DS0c	-0.108	0.193
GP01	-0.74	1.065
GP02	1.328	-0.271
GP0c	-0.156	-0.257
NOD	-0.395	0.716
NZO	-0.016	0.077
PWK	-0.521	0.175
H37Rv_KO_CtpC	0.518	-0.755
H37Rv_KO_CtpD	-0.152	-0.643
H37Rv_KO_Rv1272	0.766	-0.229
H37Rv_KO_SugABC	0.267	-0.009
H37Rv_KO_MbtN	-1.043	-1.433
Trans05	-0.256	-0.542
macrophage_unactivated	-0.713	-1.386
IL1	-4.384	-5.09
Rapamycin	-4.815	-4.944
Tcell	3.213	2.366
GMCSF	-3.438	-4.267
IFNab	-4.604	-4.734
IFNg	-3.779	-4.479
IFNg_GMCSF1	-4.28	-5.144
Rv1432_day32	-0.021	0.077
Rv1565c_day32	-0.071	0.18
secA2_input	-0.867	-0.941
delta_Rv3594	0.947	-0.393
delta_Rv3717	0.522	-0.339
delta_Rv3811	0.5	-0.082
delta_Rv0954	0.74	0.141
PonA1	1.232	-0.029
EccD1_KO	0.039	-0.428
EspI_KO	0.165	-0.034
PE35_KO	-0.07	-0.604
PPE68_KO	0.4	-0.877
glycerol2	-0.587	0.901
lignocerate	-0.149	0.793
oleate	-0.255	0.906
phosphatidylcholine	-0.074	1.018
acetate	-0.11	0.318
glucAc	-0.097	0.22
Rv0950ko	0.302	0.356
Rv1096ko	0.516	0.425
Rv3684ko	0.249	-0.016
delta_otsA_trehalose	0.894	1.092