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 Rv1514c/-:

update plot	correlation	link to info on gene
Rv1182/papA3	(cc=0.6036)	info on Rv1182/papA3
Rv1541c/lprI	(cc=0.5843)	info on Rv1541c/lprI
Rv0634c/-	(cc=0.5816)	info on Rv0634c/-
Rv0910/-	(cc=0.5808)	info on Rv0910/-
Rv1221/sigE	(cc=0.5759)	info on Rv1221/sigE
Rv1281c/oppD	(cc=0.5692)	info on Rv1281c/oppD
Rv1653/argJ	(cc=0.5689)	info on Rv1653/argJ
Rv1708/-	(cc=0.5681)	info on Rv1708/-
Rv1118c/-	(cc=0.5506)	info on Rv1118c/-
Rv1251c/-	(cc=0.5402)	info on Rv1251c/-

Correlation of Rv1514c/- with Rv1251c/-

Normalized LFCs for Rv1514c/-:
(description and provenance of datasets)

	Rv1514c/-	Rv1251c/-
Fe_supp_jason_reseq	1.347	-0.343
low_pH_jason_reseq	0.361	0.435
NO_jason_reseq	0.772	0.572
B6_jason_reseq	1.724	0.611
MHCII_jason_reseq	1.487	1.169
Isoniazid02	-0.621	0.469
Rifampicin4	-0.422	0.184
Ethambutol3	0.975	0.635
Meropenem3	-0.187	1.521
Vancomycin16	-0.414	-0.125
Rv2680_day32	-0.803	-0.822
H37Rv_KO_MarP	0.721	0.251
hypoxia_3wks	0.199	-0.116
hypoxia_6wks	-0.455	0.029
glycerol	0.989	0.418
cholesterol	0.095	0.343
AJ	0.432	0.41
Bibs02	0.277	0.433
Bibs02c	0.593	0.541
BL6	-0.088	0.171
BL6a	-0.11	0.271
BXD01	-0.534	0.0
BXD010	-0.356	-0.378
BXD011	-0.354	-0.257
BXD03	-0.697	-0.592
BXD04	-0.666	0.0
BXD05	-0.175	0.036
BXD06	-0.602	-0.494
BXD07	-0.117	-0.326
BXD08	-0.876	-0.037
BXD09	-0.272	-0.414
CAST	-0.37	0.143
CCcont	0.079	-0.173
DS01	0.094	0.66
DS02	0.25	0.594
DS04	1.03	0.762
DS0c	0.379	0.561
GP01	0.014	-0.221
GP02	-1.422	-0.889
GP0c	-0.924	-0.464
NOD	0.542	0.159
NZO	-0.199	0.399
PWK	-0.054	0.392
H37Rv_KO_CtpC	-1.154	-0.076
H37Rv_KO_CtpD	0.067	-0.608
H37Rv_KO_Rv1272	-0.759	-0.135
H37Rv_KO_SugABC	0.077	0.592
H37Rv_KO_MbtN	-0.465	0.174
Trans05	0.243	0.0
macrophage_unactivated	-0.486	-0.309
IL1	0.525	-0.193
Rapamycin	0.187	-0.049
Tcell	-0.209	-0.052
GMCSF	-0.795	0.203
IFNab	-0.193	-0.508
IFNg	0.569	-0.043
IFNg_GMCSF1	0.377	-0.258
Rv1432_day32	-0.902	0.0
Rv1565c_day32	0.223	0.635
secA2_input	-1.154	-0.348
delta_Rv3594	1.244	0.162
delta_Rv3717	0.048	0.277
delta_Rv3811	0.73	0.106
delta_Rv0954	0.049	-0.147
PonA1	0.629	-0.178
EccD1_KO	1.394	0.97
EspI_KO	2.145	0.633
PE35_KO	1.852	0.368
PPE68_KO	2.755	0.653
glycerol2	0.593	-0.126
lignocerate	0.675	0.213
oleate	0.465	-0.264
phosphatidylcholine	0.28	0.167
acetate	0.504	0.02
glucAc	0.811	0.012
Rv0950ko	-1.182	-0.772
Rv1096ko	-0.609	0.0
Rv3684ko	-0.534	-0.432
delta_otsA_trehalose	-0.139	-0.232