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 Rv2978c/-:

update plot	correlation	link to info on gene
Rv1422/-	(cc=0.5113)	info on Rv1422/-
Rv2270/lppN	(cc=0.5113)	info on Rv2270/lppN
Rv1962A/vapB35	(cc=0.51)	info on Rv1962A/vapB35
Rv3768/-	(cc=0.5032)	info on Rv3768/-
Rv1946c/lppG	(cc=0.4917)	info on Rv1946c/lppG
Rv0581/vapB26	(cc=0.4892)	info on Rv0581/vapB26
Rv1079/metB	(cc=0.4711)	info on Rv1079/metB
Rv2673/aftC	(cc=0.4682)	info on Rv2673/aftC
Rv1225c/-	(cc=0.4676)	info on Rv1225c/-
Rv2980/-	(cc=0.4671)	info on Rv2980/-

Correlation of Rv2978c/- with Rv1962A/vapB35

Normalized LFCs for Rv2978c/-:
(description and provenance of datasets)

	Rv2978c/-	Rv1962A/vapB35
Fe_supp_jason_reseq	-0.052	-2.087
low_pH_jason_reseq	-0.261	0.751
NO_jason_reseq	-0.221	-1.016
B6_jason_reseq	-1.303	-1.721
MHCII_jason_reseq	-1.184	-1.617
Isoniazid02	0.611	2.993
Rifampicin4	0.753	0.249
Ethambutol3	1.126	2.526
Meropenem3	0.223	0.248
Vancomycin16	-0.146	0.716
Rv2680_day32	-0.586	1.845
H37Rv_KO_MarP	0.179	-0.189
hypoxia_3wks	0.211	0.116
hypoxia_6wks	0.762	0.031
glycerol	0.0	0.0
cholesterol	0.526	0.461
AJ	0.605	-0.126
Bibs02	-0.49	0.032
Bibs02c	0.377	-1.338
BL6	0.505	1.12
BL6a	0.517	-0.145
BXD01	0.473	1.863
BXD010	0.334	0.637
BXD011	0.445	1.169
BXD03	1.353	1.383
BXD04	0.341	-0.267
BXD05	-0.054	0.594
BXD06	0.263	1.383
BXD07	1.436	0.953
BXD08	0.367	2.545
BXD09	0.491	1.258
CAST	0.377	-0.706
CCcont	0.478	0.855
DS01	0.387	1.042
DS02	-0.944	-1.32
DS04	-1.154	-0.461
DS0c	-0.696	0.255
GP01	0.257	1.804
GP02	0.627	0.565
GP0c	0.169	1.454
NOD	0.0	1.705
NZO	-0.806	-2.362
PWK	0.418	-0.51
H37Rv_KO_CtpC	0.32	0.43
H37Rv_KO_CtpD	0.786	2.829
H37Rv_KO_Rv1272	-0.086	1.058
H37Rv_KO_SugABC	1.188	0.46
H37Rv_KO_MbtN	-0.809	-0.34
Trans05	0.38	2.557
macrophage_unactivated	0.922	0.051
IL1	0.234	-1.109
Rapamycin	-0.7	-1.746
Tcell	-0.619	1.838
GMCSF	0.0	-0.882
IFNab	-0.2	-0.665
IFNg	-0.609	-0.259
IFNg_GMCSF1	0.342	0.333
Rv1432_day32	0.541	-0.488
Rv1565c_day32	-3.101	-0.177
secA2_input	0.095	-1.324
delta_Rv3594	1.892	0.575
delta_Rv3717	0.165	-0.272
delta_Rv3811	0.617	0.458
delta_Rv0954	1.336	-0.293
PonA1	1.051	0.434
EccD1_KO	2.601	2.174
EspI_KO	2.524	1.437
PE35_KO	2.018	2.896
PPE68_KO	2.323	2.377
glycerol2	-0.112	0.113
lignocerate	-0.51	-0.946
oleate	0.159	1.197
phosphatidylcholine	0.0	0.203
acetate	-1.358	-0.893
glucAc	-1.16	-1.917
Rv0950ko	0.0	-0.546
Rv1096ko	0.76	0.377
Rv3684ko	0.219	-0.593
delta_otsA_trehalose	-0.659	0.654