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 Rv2071c/cobM:

update plot	correlation	link to info on gene
Rv2545/vapB18	(cc=0.5834)	info on Rv2545/vapB18
Rv3555c/-	(cc=0.571)	info on Rv3555c/-
Rv2792c/-	(cc=0.5652)	info on Rv2792c/-
Rv2529/-	(cc=0.5615)	info on Rv2529/-
Rv1960c/parD1	(cc=0.5581)	info on Rv1960c/parD1
Rv0844c/narL	(cc=0.556)	info on Rv0844c/narL
Rv0211/pckA	(cc=0.5503)	info on Rv0211/pckA
Rv2464c/-	(cc=0.5459)	info on Rv2464c/-
Rv2161c/-	(cc=0.5247)	info on Rv2161c/-
Rv3146/nuoB	(cc=0.5175)	info on Rv3146/nuoB

Correlation of Rv2071c/cobM with Rv2529/-

Normalized LFCs for Rv2071c/cobM:
(description and provenance of datasets)

	Rv2071c/cobM	Rv2529/-
Fe_supp_jason_reseq	-0.581	0.069
low_pH_jason_reseq	-0.599	0.074
NO_jason_reseq	-0.084	0.039
B6_jason_reseq	-1.398	-0.675
MHCII_jason_reseq	-1.519	-0.446
Isoniazid02	1.014	0.842
Rifampicin4	0.143	0.233
Ethambutol3	1.172	2.382
Meropenem3	0.476	1.251
Vancomycin16	0.093	0.048
Rv2680_day32	1.19	1.313
H37Rv_KO_MarP	-0.128	0.03
hypoxia_3wks	-0.343	-0.327
hypoxia_6wks	-0.447	-1.138
glycerol	1.027	1.641
cholesterol	0.585	-0.435
AJ	-0.113	1.007
Bibs02	0.102	-0.55
Bibs02c	-0.186	0.355
BL6	0.405	-0.326
BL6a	0.0	0.31
BXD01	0.632	0.255
BXD010	0.254	0.607
BXD011	0.312	0.402
BXD03	0.3	0.79
BXD04	0.524	0.524
BXD05	0.145	1.084
BXD06	0.376	0.391
BXD07	0.468	0.405
BXD08	0.899	1.154
BXD09	0.354	0.491
CAST	-0.135	0.829
CCcont	0.852	0.234
DS01	-0.091	-0.149
DS02	-0.106	0.0
DS04	-0.319	-0.122
DS0c	-0.083	0.533
GP01	1.257	1.169
GP02	1.231	1.674
GP0c	1.225	0.805
NOD	1.355	0.166
NZO	-0.488	-0.727
PWK	0.091	-0.55
H37Rv_KO_CtpC	0.105	0.567
H37Rv_KO_CtpD	0.936	0.164
H37Rv_KO_Rv1272	0.693	1.426
H37Rv_KO_SugABC	1.0	0.562
H37Rv_KO_MbtN	0.85	0.016
Trans05	0.57	0.976
macrophage_unactivated	-0.874	-0.836
IL1	-0.575	0.098
Rapamycin	-0.255	-0.068
Tcell	-1.15	-0.336
GMCSF	-0.364	-0.119
IFNab	-0.218	0.789
IFNg	-0.74	-0.537
IFNg_GMCSF1	-0.097	-0.399
Rv1432_day32	-0.297	-0.096
Rv1565c_day32	-0.032	0.276
secA2_input	0.888	-0.695
delta_Rv3594	-0.459	-0.207
delta_Rv3717	-0.237	-0.073
delta_Rv3811	-0.373	-1.596
delta_Rv0954	-0.377	-1.774
PonA1	-0.735	0.081
EccD1_KO	-0.674	0.0
EspI_KO	-0.282	-0.191
PE35_KO	0.216	0.481
PPE68_KO	-0.093	0.272
glycerol2	0.242	-0.294
lignocerate	0.261	0.037
oleate	0.333	0.084
phosphatidylcholine	0.466	0.181
acetate	-0.18	0.326
glucAc	0.0	0.282
Rv0950ko	0.121	0.169
Rv1096ko	-0.881	0.434
Rv3684ko	-0.757	0.242
delta_otsA_trehalose	0.164	1.514