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 Rv2180c/-:

update plot	correlation	link to info on gene
Rv0078A/-	(cc=0.4876)	info on Rv0078A/-
Rv2305/-	(cc=0.4511)	info on Rv2305/-
Rv2854/-	(cc=0.4462)	info on Rv2854/-
Rv0321/dcd	(cc=0.4027)	info on Rv0321/dcd
Rv2083/-	(cc=0.4004)	info on Rv2083/-
Rv0629c/recD	(cc=0.3948)	info on Rv0629c/recD
Rv3761c/fadE36	(cc=0.385)	info on Rv3761c/fadE36
Rv2677c/hemY	(cc=0.3811)	info on Rv2677c/hemY
Rv1035c/-	(cc=0.3737)	info on Rv1035c/-
Rv0903c/prrA	(cc=0.3719)	info on Rv0903c/prrA

Correlation of Rv2180c/- with Rv0078A/-

Normalized LFCs for Rv2180c/-:
(description and provenance of datasets)

	Rv2180c/-	Rv0078A/-
Fe_supp_jason_reseq	-0.788	-0.272
low_pH_jason_reseq	-0.738	0.296
NO_jason_reseq	0.242	0.37
B6_jason_reseq	0.594	0.53
MHCII_jason_reseq	0.51	0.013
Isoniazid02	0.656	1.139
Rifampicin4	0.728	-0.024
Ethambutol3	1.836	1.885
Meropenem3	0.397	-0.211
Vancomycin16	0.531	-0.467
Rv2680_day32	0.547	0.045
H37Rv_KO_MarP	-0.168	0.746
hypoxia_3wks	-0.897	0.566
hypoxia_6wks	-0.029	0.236
glycerol	0.092	0.8
cholesterol	-0.325	-0.044
AJ	-0.274	-0.518
Bibs02	-0.201	-0.784
Bibs02c	-0.068	-0.744
BL6	-1.279	-1.067
BL6a	0.105	0.278
BXD01	0.232	0.272
BXD010	0.812	1.097
BXD011	0.239	0.287
BXD03	-0.005	0.092
BXD04	0.717	-0.261
BXD05	0.59	0.408
BXD06	1.615	0.128
BXD07	0.16	0.243
BXD08	-0.11	-0.383
BXD09	0.229	0.361
CAST	-0.329	-0.095
CCcont	-1.571	-0.686
DS01	0.099	-0.024
DS02	-0.039	-1.805
DS04	-0.956	-0.832
DS0c	-1.158	-0.834
GP01	-0.66	0.405
GP02	0.929	-0.273
GP0c	-0.532	0.025
NOD	0.024	-0.213
NZO	-0.595	-0.371
PWK	-0.604	-0.06
H37Rv_KO_CtpC	0.418	-0.119
H37Rv_KO_CtpD	-1.125	0.167
H37Rv_KO_Rv1272	-0.231	-0.626
H37Rv_KO_SugABC	-0.535	-1.518
H37Rv_KO_MbtN	-0.348	-0.49
Trans05	-0.487	0.554
macrophage_unactivated	1.127	-0.376
IL1	0.403	-0.131
Rapamycin	0.255	0.457
Tcell	0.137	0.443
GMCSF	-0.565	0.932
IFNab	1.046	0.411
IFNg	0.772	0.294
IFNg_GMCSF1	0.239	0.745
Rv1432_day32	0.323	0.81
Rv1565c_day32	0.935	-0.491
secA2_input	-0.492	0.0
delta_Rv3594	0.337	1.023
delta_Rv3717	0.57	0.374
delta_Rv3811	-0.028	-0.366
delta_Rv0954	0.867	0.947
PonA1	0.515	-0.382
EccD1_KO	-0.25	-0.816
EspI_KO	-0.465	-2.039
PE35_KO	-0.502	-0.032
PPE68_KO	-0.317	0.035
glycerol2	-0.399	-0.46
lignocerate	-0.913	-0.852
oleate	0.274	0.055
phosphatidylcholine	-0.367	-0.248
acetate	-0.874	-1.23
glucAc	-1.995	-1.868
Rv0950ko	-0.283	-0.597
Rv1096ko	-0.431	0.733
Rv3684ko	0.059	0.334
delta_otsA_trehalose	-0.762	-0.342