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 Rv1881c/lppE:

update plot	correlation	link to info on gene
Rv2355/-	(cc=0.4696)	info on Rv2355/-
Rv2116/lppK	(cc=0.4552)	info on Rv2116/lppK
Rv0755A/-	(cc=0.4444)	info on Rv0755A/-
Rv0148/-	(cc=0.4348)	info on Rv0148/-
Rv1424c/-	(cc=0.4301)	info on Rv1424c/-
Rv3116/moeB2	(cc=0.4205)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.412)	info on Rv1984c/cfp21
Rv1917c/PPE34	(cc=0.4107)	info on Rv1917c/PPE34
Rv2649/-	(cc=0.4094)	info on Rv2649/-
Rv0796/-	(cc=0.399)	info on Rv0796/-

Correlation of Rv1881c/lppE with Rv1917c/PPE34

Normalized LFCs for Rv1881c/lppE:
(description and provenance of datasets)

	Rv1881c/lppE	Rv1917c/PPE34
Fe_supp_jason_reseq	0.23	0.756
low_pH_jason_reseq	-0.739	-0.311
NO_jason_reseq	0.0	0.15
B6_jason_reseq	0.018	0.621
MHCII_jason_reseq	0.528	0.641
Isoniazid02	0.298	0.063
Rifampicin4	0.593	0.173
Ethambutol3	-0.058	0.472
Meropenem3	-0.025	0.435
Vancomycin16	0.708	0.0
Rv2680_day32	0.253	0.08
H37Rv_KO_MarP	-0.24	-0.09
hypoxia_3wks	-0.116	-0.327
hypoxia_6wks	0.271	-0.048
glycerol	-1.024	-0.107
cholesterol	-1.087	0.128
AJ	0.109	0.57
Bibs02	-0.056	0.162
Bibs02c	0.671	0.318
BL6	0.769	-0.053
BL6a	0.73	0.471
BXD01	0.08	0.587
BXD010	0.309	0.534
BXD011	0.105	0.557
BXD03	-0.148	-0.042
BXD04	0.089	0.582
BXD05	-0.165	0.634
BXD06	-0.076	0.566
BXD07	0.099	0.283
BXD08	0.176	0.237
BXD09	-0.154	0.465
CAST	0.058	0.489
CCcont	-0.279	0.059
DS01	0.666	0.71
DS02	1.134	0.517
DS04	0.795	0.492
DS0c	0.709	0.368
GP01	0.461	0.503
GP02	0.737	0.523
GP0c	0.615	0.496
NOD	0.441	0.657
NZO	0.397	0.522
PWK	-0.175	0.281
H37Rv_KO_CtpC	-0.362	0.743
H37Rv_KO_CtpD	0.037	1.346
H37Rv_KO_Rv1272	0.061	1.285
H37Rv_KO_SugABC	0.365	1.237
H37Rv_KO_MbtN	0.737	0.899
Trans05	0.423	1.105
macrophage_unactivated	0.032	0.275
IL1	-0.03	-0.116
Rapamycin	-0.19	-0.203
Tcell	-0.202	0.44
GMCSF	0.702	0.325
IFNab	-0.091	-0.366
IFNg	0.094	0.035
IFNg_GMCSF1	0.094	-0.082
Rv1432_day32	-0.536	0.139
Rv1565c_day32	0.54	0.366
secA2_input	0.097	-0.675
delta_Rv3594	0.09	0.503
delta_Rv3717	-0.395	0.072
delta_Rv3811	0.364	0.363
delta_Rv0954	0.455	-0.36
PonA1	0.102	-0.493
EccD1_KO	0.016	-0.138
EspI_KO	0.374	-0.12
PE35_KO	-0.114	-0.123
PPE68_KO	0.035	-0.067
glycerol2	-0.083	0.303
lignocerate	-0.626	0.424
oleate	0.318	0.289
phosphatidylcholine	-0.088	0.641
acetate	-0.504	0.209
glucAc	-0.442	0.274
Rv0950ko	-0.38	-0.187
Rv1096ko	-0.992	-0.841
Rv3684ko	-1.205	-0.796
delta_otsA_trehalose	-1.649	-0.262