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 Rv1924c/-:

update plot	correlation	link to info on gene
Rv3842c/glpQ1	(cc=0.6629)	info on Rv3842c/glpQ1
Rv1387/PPE20	(cc=0.6073)	info on Rv1387/PPE20
Rv1683/-	(cc=0.5816)	info on Rv1683/-
Rv0645c/mmaA1	(cc=0.5762)	info on Rv0645c/mmaA1
Rv3263/-	(cc=0.5576)	info on Rv3263/-
Rv1925/fadD31	(cc=0.5344)	info on Rv1925/fadD31
Rv1779c/-	(cc=0.5332)	info on Rv1779c/-
Rv0930/pstA1	(cc=0.5168)	info on Rv0930/pstA1
Rv0181c/-	(cc=0.5135)	info on Rv0181c/-
Rv0818/-	(cc=0.5048)	info on Rv0818/-

Correlation of Rv1924c/- with Rv1779c/-

Normalized LFCs for Rv1924c/-:
(description and provenance of datasets)

	Rv1924c/-	Rv1779c/-
Fe_supp_jason_reseq	-1.916	-0.715
low_pH_jason_reseq	0.249	0.468
NO_jason_reseq	1.373	0.021
B6_jason_reseq	1.172	-0.601
MHCII_jason_reseq	0.727	-0.736
Isoniazid02	-0.06	-0.469
Rifampicin4	0.287	0.119
Ethambutol3	0.083	-0.148
Meropenem3	0.904	-0.399
Vancomycin16	0.257	-1.165
Rv2680_day32	-0.359	0.604
H37Rv_KO_MarP	0.102	0.164
hypoxia_3wks	-1.244	0.0
hypoxia_6wks	-0.693	-0.499
glycerol	-0.345	-1.34
cholesterol	-0.674	-0.107
AJ	1.254	0.819
Bibs02	1.081	0.926
Bibs02c	-0.371	0.855
BL6	0.979	0.235
BL6a	0.868	0.661
BXD01	1.062	0.675
BXD010	1.025	-0.058
BXD011	2.165	0.099
BXD03	0.856	0.786
BXD04	1.44	1.114
BXD05	1.857	0.712
BXD06	2.334	0.562
BXD07	1.717	0.861
BXD08	0.799	1.067
BXD09	1.228	0.591
CAST	0.455	-0.284
CCcont	-0.597	0.449
DS01	-0.079	-0.438
DS02	-0.277	-0.058
DS04	-0.319	0.462
DS0c	-0.85	0.563
GP01	1.024	1.292
GP02	1.429	1.266
GP0c	1.462	1.354
NOD	1.469	0.583
NZO	1.662	0.897
PWK	2.461	0.102
H37Rv_KO_CtpC	0.461	0.841
H37Rv_KO_CtpD	1.174	0.806
H37Rv_KO_Rv1272	-0.039	1.009
H37Rv_KO_SugABC	1.223	0.668
H37Rv_KO_MbtN	0.553	0.704
Trans05	1.844	0.41
macrophage_unactivated	-0.817	-0.622
IL1	0.403	0.219
Rapamycin	0.037	1.028
Tcell	0.424	0.215
GMCSF	-0.209	-0.702
IFNab	0.508	0.366
IFNg	-0.144	-0.115
IFNg_GMCSF1	0.478	0.129
Rv1432_day32	3.186	1.061
Rv1565c_day32	-0.559	0.0
secA2_input	-1.047	0.111
delta_Rv3594	0.895	-0.035
delta_Rv3717	2.246	0.269
delta_Rv3811	0.604	0.165
delta_Rv0954	-1.319	-0.603
PonA1	-0.681	-0.72
EccD1_KO	-0.483	-1.457
EspI_KO	-0.861	-0.559
PE35_KO	-1.097	-0.945
PPE68_KO	-1.142	-1.037
glycerol2	0.441	0.042
lignocerate	1.701	0.458
oleate	-1.182	0.333
phosphatidylcholine	0.803	0.581
acetate	2.04	0.303
glucAc	2.173	0.499
Rv0950ko	0.103	0.112
Rv1096ko	0.268	-0.537
Rv3684ko	1.415	0.295
delta_otsA_trehalose	2.452	1.24