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 Rv0495c/-:

update plot	correlation	link to info on gene
Rv1471/trxB1	(cc=0.6096)	info on Rv1471/trxB1
Rv0519c/-	(cc=0.523)	info on Rv0519c/-
Rv1526c/-	(cc=0.5196)	info on Rv1526c/-
Rv2544/lppB	(cc=0.5136)	info on Rv2544/lppB
Rv1051c/-	(cc=0.4858)	info on Rv1051c/-
Rv0590A/-	(cc=0.4803)	info on Rv0590A/-
Rv1765A/-	(cc=0.4666)	info on Rv1765A/-
Rv0698/-	(cc=0.4555)	info on Rv0698/-
Rv1167c/-	(cc=0.4474)	info on Rv1167c/-
Rv3780/-	(cc=0.4326)	info on Rv3780/-

Correlation of Rv0495c/- with Rv1471/trxB1

Normalized LFCs for Rv0495c/-:
(description and provenance of datasets)

	Rv0495c/-	Rv1471/trxB1
Fe_supp_jason_reseq	-0.74	-1.092
low_pH_jason_reseq	-0.137	-0.035
NO_jason_reseq	1.037	-0.242
B6_jason_reseq	-2.051	-1.221
MHCII_jason_reseq	-1.332	-2.743
Isoniazid02	1.336	0.432
Rifampicin4	-1.974	-1.313
Ethambutol3	-0.711	0.133
Meropenem3	-0.701	-0.465
Vancomycin16	-1.738	0.34
Rv2680_day32	0.0	0.343
H37Rv_KO_MarP	0.841	-0.665
hypoxia_3wks	-1.328	-1.188
hypoxia_6wks	0.171	1.232
glycerol	2.951	2.319
cholesterol	-0.614	0.532
AJ	-0.983	1.743
Bibs02	0.256	-0.158
Bibs02c	-1.049	-0.446
BL6	1.35	3.592
BL6a	0.936	2.91
BXD01	0.44	0.812
BXD010	1.214	2.067
BXD011	1.258	2.63
BXD03	0.066	2.354
BXD04	0.623	2.435
BXD05	0.871	3.599
BXD06	0.672	2.481
BXD07	0.82	2.685
BXD08	0.243	2.983
BXD09	1.303	2.301
CAST	-0.117	1.605
CCcont	2.323	2.453
DS01	0.0	1.324
DS02	-1.271	0.961
DS04	0.184	-0.932
DS0c	0.484	-0.613
GP01	-0.667	-1.378
GP02	-0.645	-1.161
GP0c	-0.066	-1.684
NOD	-0.361	-0.26
NZO	-1.348	1.604
PWK	1.269	2.083
H37Rv_KO_CtpC	1.051	3.258
H37Rv_KO_CtpD	0.381	1.628
H37Rv_KO_Rv1272	2.828	3.897
H37Rv_KO_SugABC	-0.579	1.335
H37Rv_KO_MbtN	-0.166	-0.408
Trans05	-0.655	1.81
macrophage_unactivated	-1.016	-0.211
IL1	0.0	1.124
Rapamycin	0.641	0.328
Tcell	-0.671	0.961
GMCSF	-0.449	-1.188
IFNab	0.281	0.432
IFNg	0.484	1.457
IFNg_GMCSF1	-0.101	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	-0.096	1.087
secA2_input	-2.246	-0.266
delta_Rv3594	0.753	0.089
delta_Rv3717	-0.087	2.29
delta_Rv3811	-0.068	2.127
delta_Rv0954	0.393	1.957
PonA1	0.71	-0.608
EccD1_KO	-0.079	-0.062
EspI_KO	-0.987	0.305
PE35_KO	-0.753	1.003
PPE68_KO	-0.736	1.328
glycerol2	-0.228	3.213
lignocerate	0.442	3.899
oleate	-1.569	0.688
phosphatidylcholine	-0.073	3.039
acetate	2.956	5.878
glucAc	3.04	4.496
Rv0950ko	-1.306	1.481
Rv1096ko	0.67	0.552
Rv3684ko	-1.3	-0.354
delta_otsA_trehalose	-0.443	-0.27